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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
4dsoGSPGTPase KRas

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4dsoGSPGTPase KRas/1.000
4dsuGDPGTPase KRas/0.663
3e5hGNPRas-related protein Rab-28/0.624
1yzqGNPRas-related protein Rab-6A/0.610
1zc3GNPRas-related protein Ral-A/0.606
3bbpGTPRas-related protein Rab-6A/0.606
1cxzGSPTransforming protein RhoA/0.604
1g17GNPRas-related protein SEC4/0.603
3w3zGTPGTP-binding nuclear protein Ran/0.600
4dlwGNPGTPase HRas/0.598
4nyjGNPGTPase HRas/0.596
3kudGDPGTPase HRas/0.595
1kmqGNPTransforming protein RhoA/0.594
1zc4GNPRas-related protein Ral-A/0.594
1ibrGNPGTP-binding nuclear protein Ran/0.593
3oiuGNPGTPase HRas/0.592
4nyiGNPGTPase HRas/0.592
5dhaGNPGTP-binding nuclear protein Ran/0.590
2gcpGSPRho-related GTP-binding protein RhoC/0.588
3i3sGNPGTPase HRas/0.587
4dltGNPGTPase HRas/0.586
1vg8GNPRas-related protein Rab-7a/0.585
3a58GNPGTP-binding protein RHO1/0.582
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.581
5jljGNPGTP-binding nuclear protein Ran/0.578
2bkuGTPGTP-binding nuclear protein Ran/0.577
3ddcGNPGTPase HRas/0.577
3oesGNPGTPase RhebL1/0.576
3tnfGNPRas-related protein Rab-8A/0.576
4hdoGNPRas-related protein Rap-1b/0.576
2c5lGTPGTPase HRas/0.575
3oivGNPGTPase HRas/0.574
3rs5GNPGTPase HRas/0.571
4dlxGNPGTPase HRas/0.571
2rgbGNPGTPase HRas/0.570
4kvgGTPRas-related protein Rap-1A/0.570
1a2bGSPTransforming protein RhoA/0.569
1t91GTPRas-related protein Rab-7a/0.569
2zetGTPRas-related protein Rab-27B/0.569
1zbdGTPRas-related protein Rab-3A/0.564
3a6pGTPGTP-binding nuclear protein Ran/0.562
3bc1GNPRas-related protein Rab-27A/0.562
1yhnGTPRas-related protein Rab-7a/0.561
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.561
4dsnGCPGTPase KRas/0.560
3eg5GNPCell division control protein 42 homolog/0.559
4dlzGNPGTPase HRas/0.559
2rgeGNPGTPase HRas/0.558
3kz1GSPTransforming protein RhoA/0.558
1xtsGTPGTP-binding protein Rheb/0.557
4o25GTPGTP-binding protein Rheb/0.556
4l9wGNPGTPase HRas/0.555
4rkfGNPRas-related protein Rab-3/0.555
1m7bGTPRho-related GTP-binding protein RhoE/0.554
2rgcGNPGTPase HRas/0.554
4dlvGNPGTPase HRas/0.553
3x1wGDPRas-related protein Rap-1b/0.551
3th5GNPRas-related C3 botulinum toxin substrate 1/0.550
2msdGNPMHC class I alpha chain/0.549
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.548
3rs7GNPGTPase HRas/0.548
4xoiGTPTransforming protein RhoA/0.548
5b2zGNPGTPase HRas/0.547
3rslGNPGTPase HRas/0.546
3v4fGNPGTPase HRas/0.546
3lbhGNPGTPase HRas/0.545
2gilGTPRas-related protein Rab-6A/0.544
2ffqGSPRas-related protein Rab-6B/0.543
3l8yGNPGTPase HRas/0.543
3lawGNPRas-related protein Rab-7a/0.543
3kkoGNPRas-related protein M-Ras/0.541
3lbnGNPGTPase HRas/0.540
3pitGNPRas-related protein M-Ras/0.540
2fe4GDPRas-related protein Rab-6B/0.538
3rabGNPRas-related protein Rab-3A/0.538
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.538
1gwnGTPRho-related GTP-binding protein RhoE/0.537
4dlsGNPGTPase HRas/0.536
3ea5GDPGTP-binding nuclear protein Ran/0.535
3oiwGNPGTPase HRas/0.535
4mitGTPRho-related protein racC/0.535
1e96GTPRas-related C3 botulinum toxin substrate 1/0.533
3kucGDPRas-related protein Rap-1A/0.533
4k81GTPGTPase HRas/0.533
2rggGNPGTPase HRas/0.532
4g0nGNPGTPase HRas/0.531
4lhwGNPRas-related protein Rab-8A/0.530
1s1cGNPTransforming protein RhoA/0.529
4js0GNPCell division control protein 42 homolog/0.529
5difGNPGTP-binding nuclear protein Ran/0.529
3rs0GNPGTPase HRas/0.527
3x1zGNPRas-related protein Rap-1b/0.527
1xtrGNPGTP-binding protein Rheb/0.525
1z2cGNPRho-related GTP-binding protein RhoC/0.525
2ce2GDPGTPase HRas/0.524
3nbzGTPGTP-binding nuclear protein Ran/0.524
4lv6GDPGTPase KRas/0.523
3tsoGNPRas-related protein Rab-25/0.522
4obeGDPGTPase KRas/0.522
2clsGTPRho-related GTP-binding protein Rho6/0.521
3k8yGNPGTPase HRas/0.521
4dxaGSPRas-related protein Rap-1b/0.519
4ol0GTPGTP-binding nuclear protein Ran/0.519
4ql3GDPGTPase KRas/0.517
3rs4GNPGTPase HRas/0.515
4l9sGDPGTPase HRas/0.515
4xvrGNPGTPase HRas/0.512
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.510
4o2lGTPGTP-binding protein Rheb/0.508
3lbiGNPGTPase HRas/0.505
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.505
4l8gGDPGTPase KRas/0.504
4uj3GNPRas-related protein Rab-11A/0.503
4epxGDPGTPase KRas/0.502
1k5dGNPGTP-binding nuclear protein Ran/0.500
3tgpGNPGTPase HRas/0.500
3tklGTPRas-related protein Rab-1A/0.500
1lfdGNPGTPase HRas/0.499
4hdqGNPRas-related protein Rap-1b/0.499
4tq9GDPGTPase KRas/0.499
4q03GDPGTPase KRas/0.496
4qxaGTPRas-related protein Rab-9A/0.496
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.494
3kkqGDPRas-related protein M-Ras/0.494
2cl6CAGGTPase HRas/0.492
4ldjGDPGTPase KRas/0.492
4cymGCPRas-related protein Rab-32/0.491
4uj5GNPRas-related protein Rab-11A/0.491
1z0aGDPRas-related protein Rab-2A/0.489
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.487
3wygGTPGTP-binding nuclear protein GSP1/CNR1/0.486
4epwGDPGTPase KRas/0.486
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.485
4lpkGDPGTPase KRas/0.484
3qbtGNPRas-related protein Rab-8A/0.481
4wa7GDPGTPase KRas/0.480
1oixGDPRas-related protein Rab-11A/0.476
4o2rGDPGTP-binding protein Rheb/0.474
4lucGDPGTPase KRas/0.473
4xvqGNPGTPase HRas/0.470
5hpyGDPTransforming protein RhoA/0.470
5k2bZMAAdenosine receptor A2a/0.469
1zd9GDPADP-ribosylation factor-like protein 8A/0.467
3k9lGNPGTPase HRas/0.465
4af7FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic1.18.1.20.464
4lrwGDPGTPase KRas/0.463
1ow3GDPTransforming protein RhoA/0.461
1n6lGTPRas-related protein Rab-5A/0.458
3tm5SFGUncharacterized protein/0.458
4q02GDPGTPase KRas/0.457
3zkyWT4Isopenicillin N synthase1.21.3.10.454
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.454
4n3l2FNProthrombin3.4.21.50.453
2l0xGDPGTP-binding protein Rheb/0.452
2jb4A14Isopenicillin N synthase1.21.3.10.450
2nnqT4BFatty acid-binding protein, adipocyte/0.450
1w78PD8Dihydrofolate synthase/folylpolyglutamate synthase6.3.2.120.449
1d5cGDPGTPase (Rab6)/0.448
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.448
3tfq07MCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
3gn2AX8Pteridine reductase/0.445
5c1mCLRMu-type opioid receptor/0.445
2g6iHBINitric oxide synthase, brain1.14.13.390.444
3gxoSAHMitomycin biosynthesis 6-O-methyltransferase/0.444
1so2666cGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.443
4dvgGSPRho family GTPase/0.443
1yu9GNPRas-related protein Rab-4A/0.442
2zitNADExotoxin A2.4.2.360.442
3naxMP73-phosphoinositide-dependent protein kinase 12.7.11.10.440